Systems based analysis of human embryos and gene networks involved in cell lineage allocation

Single-Cell RNA-Seq Reveals Lineage and X Chromosome Dynamics in Human Preimplantation Embryos

(2016) Sophie Petropoulos et al.   CELL

Dynamic transcriptional symmetry-breaking in pre-implantation mammalian embryo development revealed by single-cell RNA-seq

(2015) Junchao Shi et al.   DEVELOPMENT

Human stem cells from single blastomeres reveal pathways of embryonic or trophoblast fate specification

(2015) T. Zdravkovic et al.   DEVELOPMENT

Developmental windows of susceptibility for epigenetic inheritance through the male germline

(2015) Lundi Ly et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

changepoint: AnRPackage for Changepoint Analysis

(2015) Rebecca Killick et al.   Journal of Statistical Software

DNA methylation dynamics during epigenetic reprogramming in the germline and preimplantation embryos

(2014) D. M. Messerschmidt et al.   GENES & DEVELOPMENT

Comparison of epigenetic mediator expression and function in mouse and human embryonic blastomeres

(2014) Shawn L. Chavez et al.   HUMAN MOLECULAR GENETICS

Metabolic heterogeneity during preimplantation development: the missing link?

(2014) Daniel R. Brison et al.   HUMAN REPRODUCTION UPDATE

Totipotency and lineage segregation in the human embryo

(2014) C. De Paepe et al.   MOLECULAR HUMAN REPRODUCTION

The DNA methylation landscape of human early embryos

(2014) Hongshan Guo et al.   NATURE

The BioGRID interaction database: 2015 update

(2014) Andrew Chatr-aryamontri et al.   NUCLEIC ACIDS RESEARCH

Transcriptome-wide Variability in Single Embryonic Development Cells

(2014) Vincent Piras et al.   Scientific Reports

Causal analysis approaches in Ingenuity Pathway Analysis

(2013) Andreas Krämer et al.   BIOINFORMATICS

Human growth is associated with distinct patterns of gene expression in evolutionarily conserved networks

(2013) Adam Stevens et al.   BMC GENOMICS

Epigenomic Analysis of Multilineage Differentiation of Human Embryonic Stem Cells

(2013) Wei Xie et al.   CELL

Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing

(2013) Zhigang Xue et al.   NATURE

The Gene Expression Barcode 3.0: improved data processing and mining tools

(2013) Matthew N. McCall et al.   NUCLEIC ACIDS RESEARCH

Global Gene Expression Profiling of Individual Human Oocytes and Embryos Demonstrates Heterogeneity in Early Development

(2013) Lisa Shaw et al.   PLoS One

How should we assess the safety of IVF technologies?

(2013) Daniel R. Brison et al.   REPRODUCTIVE BIOMEDICINE ONLINE

ModuLand plug-in for Cytoscape: determination of hierarchical layers of overlapping network modules and community centrality

(2012) Máté Szalay-Bekő et al.   BIOINFORMATICS

A travel guide to Cytoscape plugins

(2012) Rintaro Saito et al.   NATURE METHODS

Comparison of gene expression in fresh and frozen–thawed human preimplantation embryos

(2012) Lisa Shaw et al.   REPRODUCTION

Trim28 Is Required for Epigenetic Stability During Mouse Oocyte to Embryo Transition

(2012) D. M. Messerschmidt et al.   SCIENCE

The projection score - an evaluation criterion for variable subset selection in PCA visualization

(2011) Magnus Fontes et al.   BMC BIOINFORMATICS

Waves of early transcriptional activation and pluripotency program initiation during human preimplantation development

(2011) R. Vassena et al.   DEVELOPMENT

When and how should new technology be introduced into the IVF laboratory?

(2011) J. Harper et al.   HUMAN REPRODUCTION

Frozen robust multiarray analysis (fRMA)

(2010) M. N. McCall et al.   BIOSTATISTICS

Non-invasive imaging of human embryos before embryonic genome activation predicts development to the blastocyst stage

(2010) Connie C Wong et al.   NATURE BIOTECHNOLOGY

Functional Genomics of 5- to 8-Cell Stage Human Embryos by Blastomere Single-Cell cDNA Analysis

(2010) Amparo Galán et al.   PLoS One

Regulation of Translation Initiation in Eukaryotes: Mechanisms and Biological Targets

(2009) Nahum Sonenberg et al.   CELL

The Hippo Signaling Pathway Components Lats and Yap Pattern Tead4 Activity to Distinguish Mouse Trophectoderm from Inner Cell Mass

(2009) Noriyuki Nishioka et al.   DEVELOPMENTAL CELL

arrayQualityMetrics—a bioconductor package for quality assessment of microarray data

(2008) Audrey Kauffmann et al.   BIOINFORMATICS